Magnesium in PDB 4juo: A Low-Resolution Three-Gate Structure of Topoisomerase IV From Streptococcus Pneumoniae in Space Group H32

All present enzymatic activity of A Low-Resolution Three-Gate Structure of Topoisomerase IV From Streptococcus Pneumoniae in Space Group H32:
5.99.1.3;

The structure of A Low-Resolution Three-Gate Structure of Topoisomerase IV From Streptococcus Pneumoniae in Space Group H32, PDB code: 4juo was solved by I.Laponogov, D.A.Veselkov, X.-S.Pan, I.Crevel, L.M.Fisher, M.R.Sanderson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.44 / 6.53
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	213.580, 213.580, 211.830, 90.00, 90.00, 120.00
R / Rfree (%)	24.7 / 29.8

The structure of A Low-Resolution Three-Gate Structure of Topoisomerase IV From Streptococcus Pneumoniae in Space Group H32 also contains other interesting chemical elements:

Fluorine

(F)

1 atom

The binding sites of Magnesium atom in the A Low-Resolution Three-Gate Structure of Topoisomerase IV From Streptococcus Pneumoniae in Space Group H32 (pdb code 4juo). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the A Low-Resolution Three-Gate Structure of Topoisomerase IV From Streptococcus Pneumoniae in Space Group H32, PDB code: 4juo:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the A Low-Resolution Three-Gate Structure of Topoisomerase IV From Streptococcus Pneumoniae in Space Group H32


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of A Low-Resolution Three-Gate Structure of Topoisomerase IV From Streptococcus Pneumoniae in Space Group H32 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:64.5 occ:1.00 O03 F:LFX101 2.0 83.0 1.0 O02 F:LFX101 2.0 63.2 1.0 C15 F:LFX101 3.0 77.0 1.0 C F:LFX101 3.1 85.3 1.0 C17 F:LFX101 3.4 85.3 1.0 O4 E:DT15 3.5 49.0 0.5 O4 G:DT15 4.1 51.7 0.5 O F:LFX101 4.2 95.6 1.0 C10 F:LFX101 4.3 88.3 1.0 N6 F:DA5 4.4 78.4 0.5 CB A:SER79 4.4 79.2 1.0 OG A:SER79 4.5 89.6 1.0 H13 F:LFX101 4.5 0.6 1.0 C4 E:DT15 4.7 60.0 0.5 C12 F:LFX101 4.7 92.6 1.0 C13 F:LFX101 4.9 0.3 1.0 OD2 A:ASP83 4.9 0.7 1.0

Magnesium binding site 2 out of 2 in the A Low-Resolution Three-Gate Structure of Topoisomerase IV From Streptococcus Pneumoniae in Space Group H32


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of A Low-Resolution Three-Gate Structure of Topoisomerase IV From Streptococcus Pneumoniae in Space Group H32 within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg701 b:71.6 occ:1.00 OD2 C:ASP508 2.3 98.7 1.0 OD2 C:ASP506 2.9 0.1 1.0 CG C:ASP508 3.5 0.9 1.0 OP1 G:DT15 3.8 35.7 0.5 CG C:ASP506 3.9 0.7 1.0 OD1 C:ASP508 4.0 0.0 1.0 OP1 E:DT15 4.0 47.6 0.5 CB C:ASP506 4.3 1.0 1.0 OE1 C:GLU433 4.3 0.7 1.0 CB C:ASP508 4.7 0.8 1.0 C5' E:DT15 4.9 68.8 0.5 OD1 C:ASP506 4.9 0.2 1.0

I.Laponogov, D.A.Veselkov, I.M.Crevel, X.S.Pan, L.M.Fisher, M.R.Sanderson. Structure of An 'Open' Clamp Type II Topoisomerase-Dna Complex Provides A Mechanism For Dna Capture and Transport. Nucleic Acids Res. V. 41 9911 2013.
ISSN: ISSN 0305-1048
PubMed: 23965305
DOI: 10.1093/NAR/GKT749